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Table 1 Most significant differentially regulated transcripts

From: Profile of whole blood gene expression following immune stimulation in a wild passerine

Uniprot-SwissProt annotation RPKM   Baggerley's test  
Gene name Accession Identity % Transcript name LPS ± SD Saline ± SD Fold change Test statistic P-value Known or possible functions
GAL2 P46158 91 Gallinacin-2 (Beta-defensin 2) 4.7 ± 2.3 0.02 ± 0.03 221.00 21.4 <0.00001 antimicrobial activity[55]
AVID P02701 70 Avidin 12.3 ± 5 0.2 ± 0.3 53.26 4.8 <0.00001 antimicrobial activity[56]
SAA P02740 73 Serum amyloid A protein 16.1 ± 8.3 0.6 ± 0.3 28.63 3.8 0.00017 chemoattractant for immune cells, induction of pro-inflammatory cytokines and extracellular matrix degrading enzymes [53, 57]
M126 P28318 78 Protein MRP-126 183 ± 76.8 24.1 ± 28.8 7.58 3.9 0.00011 leukocyte chemoattractant, oxidant scavenging, antimicrobial activity[58]
DNAJC12 Q9UKB3 78 DnaJ (Hsp40) homolog, subfamily C 12 10.4 ± 5.7 4.5 ± 2.4 2.30 3.7 0.00028 co-chaperone for Hsp70 proteins [59]
HPS5 Q9UPZ3 80 Ruby-eye protein 2 13.5 ± 6.2 6 ± 1.4 2.25 9.1 <0.00001 eumelanin synthesis [60]
LY75 O60449 56 Lymphocyte antigen 75 (C-type lectin, CD205) 62.9 ± 23.2 29.8 ± 12.1 2.14 5.0 <0.00001 antigen uptake of antigen presenting cells [61, 62]
GTF2H1 P32780 90 General transcription factor IIH subunit 1 69.8 ± 32.9 33.8 ± 7.9 2.07 7.5 <0.00001 part of DNA repair complex TFIIH [63]
SLC25A6 P12236 90 ADP/ATP translocase 3 (ANT3) 67.6 ± 15.7 32.9 ± 8 2.06 4.0 0.00008 cellular energy metabolism, mediation of T-cell survival [64]
ATP7A P70705 90 Copper-transporting ATPase 1 10.6 ± 1.6 5.1 ± 1.3 2.05 7.6 <0.00001 regulation of macrophage function and extracellular superoxide dismutase activity [65]
DSCR3 O14972 88 Down syndrome critical region protein 25.9 ± 2.7 12.9 ± 1.3 2.01 16.3 <0.00001 part of polymeric immunoglobulin receptor transporter retromere complex[66]
SLC38A2 Q5F468 89 Sodium-coupled neutral amino acid transporter 2 (SNAT2) 19.3 ± 7.9 49.1 ± 9.5 −2.54 −4.8 <0.00001 cell volume regulation, response to osmotic stress or amino acid depletion [67]
  1. Annotated transcripts significantly up- or down-regulated 12 h after injection of bacterial lipopolysaccharides (LPS). Whole blood mRNA expression of injected female greenfinches was compared with a set of saline injected individuals using Baggerley's test [52]. Only Uniprot-SwissProt annotated transcripts with absolute fold-change >2, RPKM >8, identity >50% and e-values under 1E-20 are shown. Positive fold-change represents higher expression levels in the LPS-injected birds. RPKM values both for LPS and saline injected birds are given with ± SD. Functions related to the immune response and other related processes are reported for the transcripts. If a direct link could not be established, functions from proteins of the same family (according to Uniprot) were attributed to the annotated transcripts (marked in italics). Evidence from avian studies is marked in bold.